Some do, some don't, you will need to check the specs for the Controller.
Also some panels have them and some don't so, again, you need to check.
Your Solar Controller sounds like it was a good one so I am guessing it had a Blocking Diode which must be fried and also the Regulator.
Burn marks and the lid blown of trannies is usually the sign of a lightning strike or very large voltage surge more so than over current but no biggee, it is shagged either way
Any decent panel will have Schottky Blocking Diodes and, possibly, Bypass Diodes on the panel.
Bypass diodes aren't needed in 12 Volt systems but are desireable in 24 and essential in anything higher.
Having one doesn't necessarily mean it has the other.
If there are diodes on the panel, Blocking Diodes will be "inline" in the +ve and Bypass will be between the +ve and -ve.
Edit... just saw the pics and, yeah, given the amount of gear that has been microwaved it got been zapped by something methinks.
Where some of the Diodes used to live looks like the aftermath of a Napalm strike so I am tipping thats your Blocking Diodes gone